Gordon Smyth <smyth at="" ...=""> wrote:
> Dear Dane,
>
> You can't. The diagram would have to generated in a somewhat
> different way than at present to make that straightforward.
>
> Best wishes
> Gordon
>
> >Date: Tue, 18 Jul 2006 17:06:32 -0400
> >From: Dane Witmer <dane at="" ...="">
> >Subject: [BioC] color venn diagrams
> >
> >Dear BioC,
> >How can I add color to venn diagrams generated with the vennDiagram
> >function in limma?
> >Thanks,
> >Dane
> >dane at ...
The thread I'm replying to is from a long time ago...
so I guess the simplest case-by case method is to output the
venndiagram to a
pdf & then add pretty colors in Illustrator...
Does someone have alternative elegant way of doing things directly in
R?
Cheers,
Yannick
--------------------------------------------
yannick . wurm @ unil . ch
Ant Genomics, Ecology & Evolution @ Lausanne
http://www.unil.ch/dee/page28685_fr.html
Hi Yannick,
What are you trying to color exactly?
The vennDiagram function in Limma does allow for the circles or the
circles to be of different colors (circle.col and counts.col).
Gordon: There is a mistake in the documentation for counts.col as it
is
a copy from circle.col. It should say counts instead of circles. It's
most likely my fault when I sent you the code for it a while ago.
Francois
Yannick Wurm wrote:
> The thread I'm replying to is from a long time ago...
>
> so I guess the simplest case-by case method is to output the
venndiagram to a
> pdf & then add pretty colors in Illustrator...
>
> Does someone have alternative elegant way of doing things directly
in R?
> Gordon Smyth <smyth at="" ...=""> wrote:
>> Dear Dane,
>>
>> You can't. The diagram would have to generated in a somewhat
>> different way than at present to make that straightforward.
>>
>> Best wishes
>> Gordon
>>
>>> Date: Tue, 18 Jul 2006 17:06:32 -0400
>>> From: Dane Witmer <dane at="" ...="">
>>> Subject: [BioC] color venn diagrams
>>>
>>> Dear BioC,
>>> How can I add color to venn diagrams generated with the
vennDiagram
>>> function in limma?
>>> Thanks,
>>> Dane
>>> dane at ...
Hi Yannick,
I think that you'd be better off with illustrator or some other tool,
especially if it's a one-off.
Otherwise, you could dive into the code to add it yourself. It
shouldn't
be that complicated, but it might not be worth the effort.
Also, please keep the discussions on list. That way other people can
chime it and it's archived, so someone else looking for it two years
from now could find this thread again.
Francois
Yannick Wurm wrote:
> Salut Fran?ois,
>
> oui toutes mes excuses, my comment was unclear:
>
> I want each area to have a different color (that means 6 surface-
colors
> total in a 3-circle diagram)... because my biologist colleagues tend
to
> prefer beautified graphs...
>
> thanks & regards,
>
> Yannick
>
>
> On Mar 23, 2009, at 20:00 , Francois Pepin wrote:
>
>> Hi Yannick,
>>
>> What are you trying to color exactly?
>>
>> The vennDiagram function in Limma does allow for the circles or the
>> circles to be of different colors (circle.col and counts.col).
>>
>> Gordon: There is a mistake in the documentation for counts.col as
it
>> is a copy from circle.col. It should say counts instead of circles.
>> It's most likely my fault when I sent you the code for it a while
ago.
>>
>> Francois
>>
>> Yannick Wurm wrote:
>> > The thread I'm replying to is from a long time ago...
>> >
>> > so I guess the simplest case-by case method is to output the
>> venndiagram to a
>> > pdf & then add pretty colors in Illustrator...
>> >
>> > Does someone have alternative elegant way of doing things
directly
>> in R?
>>
>>> Gordon Smyth <smyth at="" ...=""> wrote:
>>>> Dear Dane,
>>>>
>>>> You can't. The diagram would have to generated in a somewhat
>>>> different way than at present to make that straightforward.
>>>>
>>>> Best wishes
>>>> Gordon
>>>>
>>>>> Date: Tue, 18 Jul 2006 17:06:32 -0400
>>>>> From: Dane Witmer <dane at="" ...="">
>>>>> Subject: [BioC] color venn diagrams
>>>>>
>>>>> Dear BioC,
>>>>> How can I add color to venn diagrams generated with the
vennDiagram
>>>>> function in limma?
>>>>> Thanks,
>>>>> Dane
>>>>> dane at ...
>
Hi Yannick,
My apologies because this tool is not related to Bioconductor, but it
is
useful to draw coloured venn diagrams generated by up to four gene
lists.
You can even get the gene composition of each sector:
http://bioinfogp.cnb.csic.es/tools/venny
all the best,
Juan Carlos
> Hi Yannick,
>
> I think that you'd be better off with illustrator or some other
tool,
> especially if it's a one-off.
>
> Otherwise, you could dive into the code to add it yourself. It
shouldn't
> be that complicated, but it might not be worth the effort.
>
> Also, please keep the discussions on list. That way other people can
> chime it and it's archived, so someone else looking for it two years
> from now could find this thread again.
>
> Francois
>
> Yannick Wurm wrote:
>> Salut Fran?ois,
>>
>> oui toutes mes excuses, my comment was unclear:
>>
>> I want each area to have a different color (that means 6 surface-
colors
>> total in a 3-circle diagram)... because my biologist colleagues
tend to
>> prefer beautified graphs...
>>
>> thanks & regards,
>>
>> Yannick
>>
>>
>> On Mar 23, 2009, at 20:00 , Francois Pepin wrote:
>>
>>> Hi Yannick,
>>>
>>> What are you trying to color exactly?
>>>
>>> The vennDiagram function in Limma does allow for the circles or
the
>>> circles to be of different colors (circle.col and counts.col).
>>>
>>> Gordon: There is a mistake in the documentation for counts.col as
it
>>> is a copy from circle.col. It should say counts instead of
circles.
>>> It's most likely my fault when I sent you the code for it a while
ago.
>>>
>>> Francois
>>>
>>> Yannick Wurm wrote:
>>> > The thread I'm replying to is from a long time ago...
>>> >
>>> > so I guess the simplest case-by case method is to output the
>>> venndiagram to a
>>> > pdf & then add pretty colors in Illustrator...
>>> >
>>> > Does someone have alternative elegant way of doing things
directly
>>> in R?
>>>
>>>> Gordon Smyth <smyth at="" ...=""> wrote:
>>>>> Dear Dane,
>>>>>
>>>>> You can't. The diagram would have to generated in a somewhat
>>>>> different way than at present to make that straightforward.
>>>>>
>>>>> Best wishes
>>>>> Gordon
>>>>>
>>>>>> Date: Tue, 18 Jul 2006 17:06:32 -0400
>>>>>> From: Dane Witmer <dane at="" ...="">
>>>>>> Subject: [BioC] color venn diagrams
>>>>>>
>>>>>> Dear BioC,
>>>>>> How can I add color to venn diagrams generated with the
vennDiagram
>>>>>> function in limma?
>>>>>> Thanks,
>>>>>> Dane
>>>>>> dane at ...
>>
>
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